stc1 (SPBP8B7.28c)


Gene Standard Namestc1 Characterisation Statuspublished
Systematic IDSPBP8B7.28c Feature Typeprotein coding
Synonyms Name DescriptionSiRNA To Chromatin
ProductLIM-like protein linking chromatin modification to RNAi, Stc1 Product Size215aa, 25.07 kDa
Genomic Location Chromosome II, 3691942-3691008 (935nt); CDS:3691848-3691201 (648nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
protein binding859
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
GO Cellular Component
Term NameCount
CLRC ubiquitin ligase complex6
Annotation ExtensionEvidenceWith/FromReference
nuclear pericentric heterochromatin39
Annotation ExtensionEvidenceWith/FromReference
nucleolus363
Annotation ExtensionEvidenceWith/FromReference
nucleus2696
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term NameAlleleExpressionCount
sensitive to bortezomibstc1ΔNull256
sensitive to camptothecinstc1ΔNull225
sensitive to thiabendazolestc1ΔNull219
slow vegetative cell population growthstc1ΔNull328
viable vegetative cell populationstc1ΔNull3809

Cell Phenotype

Term NameAlleleExpressionCount
abnormal actin cortical patch localizationstc1ΔNull57
abnormal actin cytoskeletonstc1ΔNull46
abnormal meiosisstc1ΔNull120
abolished histone H3-K9 dimethylation at centromerestc1ΔNull1
centromeric outer repeat transcript-derived siRNA absentstc1ΔNull7
decreased chromatin silencing at centromere outer repeat regionstc1ΔNull35
decreased histone H3-K9 dimethylation at centromere outer repeatstc1ΔNull9
decreased protein localization to heterochromatin at centromere outer repeat8
affecting swi6stc1ΔNull
increased minichromosome loss upon segregation during vegetative growthstc1ΔNull15
lagging mitotic chromosomesstc1ΔNull26
normal centromeric outer repeat transcript-derived siRNA levelstc1ΔNull8
normal chromatin silencing at silent mating-type cassettestc1ΔNull15
normal chromatin silencing at telomerestc1ΔNull9
viable curved vegetative cellstc1ΔNull67
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons3691942..3691008
mRNA3691942..3691008
5' UTR3691942..3691849PMID:21511999
CDS3691848..3691201
3' UTR3691200..3691008PMID:21511999
Protein Features

Graphical View

Ensembl protein image with mapped locations of structural domains

Protein Families and Domains

Feature ID Database InterPro Description Start End Count
PF12898 Pfam IPR024630 Stc1 domain 41 122 1

View domain organization at Pfam

Protein Properties

Ave. residue weight 116.63 Da
Charge -3.00
Isoelectric point 5.69
Molecular weight 25.07 kDa
Number of residues 215
Modifications

Protein Modifications

Term NameResidueCount
O-phospho-L-serineS146 1672
present during mitotic M phaseS146
present during mitotic M phaseS169
Annotation ExtensionEvidenceResidueReference
experimental evidence S146 PMID:24763107
present during mitotic M phase experimental evidence S146 PMID:21712547
present during mitotic M phase experimental evidence S169 PMID:21712547
O-phospho-L-threonine 698
present during mitotic M phaseT172
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence T172 PMID:21712547
Sequence
Gene Expression

Quantitative Gene Expression

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
0.67during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
0.2during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
no apparent S. cerevisiae ortholog599
conserved in fungi only620
conserved in fungi4603
Orthologs

Orthologs in Compara


Physical Interactions

Source: BioGRID

View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
forms complex withago1argonaute Reconstituted ComplexPMID:23613586
affinity capturesago1argonaute Affinity Capture-WesternPMID:20211136
forms complex withago1argonaute Reconstituted ComplexPMID:20211136
affinity capturesclr4histone H3 lysine methyltransferase Clr4 Affinity Capture-WesternPMID:23613586
affinity capturesclr4histone H3 lysine methyltransferase Clr4 Affinity Capture-WesternPMID:20211136
affinity capturesebp2rRNA processing protein Ebp2 (predicted) Affinity Capture-MSPMID:20211136
affinity captured byers1RNA-silencing factor Ers1 Affinity Capture-WesternPMID:22733737
affinity capturesmas5DNAJ domain protein Mas5 (predicted) Affinity Capture-MSPMID:20211136
affinity capturesned8ubiquitin-like protein modifier Ned8 Affinity Capture-MSPMID:20211136
affinity capturesnop56U3 snoRNP protein Nop56 (predicted) Affinity Capture-MSPMID:20211136
affinity capturesnop58U3 snoRNP protein Nop58 (predicted) Affinity Capture-MSPMID:20211136
affinity capturespcu4cullin 4 Affinity Capture-MSPMID:20211136
affinity capturesraf1CLRC ubiquitin E3 ligase complex specificiy factor Raf1/Dos1 Affinity Capture-WesternPMID:23613586
affinity capturesraf1CLRC ubiquitin E3 ligase complex specificiy factor Raf1/Dos1 Affinity Capture-WesternPMID:20211136
affinity capturesraf1CLRC ubiquitin E3 ligase complex specificiy factor Raf1/Dos1 Affinity Capture-MSPMID:20211136
affinity capturesraf2Rik1-associated factor Raf2 Affinity Capture-WesternPMID:23613586
affinity capturesraf2Rik1-associated factor Raf2 Affinity Capture-MSPMID:20211136
affinity capturesraf2Rik1-associated factor Raf2 Affinity Capture-WesternPMID:20211136
forms complex withraf2Rik1-associated factor Raf2 Reconstituted ComplexPMID:24449894
forms complex withraf2Rik1-associated factor Raf2 Reconstituted ComplexPMID:24449894
affinity capturesrik1silencing protein Rik1 Affinity Capture-WesternPMID:23613586
affinity capturesrik1silencing protein Rik1 Affinity Capture-WesternPMID:20211136
affinity capturesrik1silencing protein Rik1 Affinity Capture-MSPMID:20211136
affinity capturesrik1silencing protein Rik1 Affinity Capture-WesternPMID:22319459
forms complex withrik1silencing protein Rik1 Reconstituted ComplexPMID:24449894
affinity capturesser1phosphoserine aminotransferase (predicted) Affinity Capture-MSPMID:20211136
affinity capturesstc1LIM-like protein linking chromatin modification to RNAi, Stc1 Affinity Capture-MSPMID:20211136
Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
negative genetic interaction withcdt2WD repeat protein Cdt2 Negative GeneticPMID:22681890
rescued byclr4histone H3 lysine methyltransferase Clr4 Phenotypic SuppressionPMID:20211136
rescuesclr4histone H3 lysine methyltransferase Clr4 Phenotypic SuppressionPMID:20211136
positive genetic interaction withclr4histone H3 lysine methyltransferase Clr4 Positive GeneticPMID:22681890
negative genetic interaction withcyp7cyclophilin family peptidyl-prolyl cis-trans isomerase Cyp7 (predicted) Negative GeneticPMID:22681890
positive genetic interaction withdsk1SR protein-specific kinase Dsk1 Positive GeneticPMID:22681890
positive genetic interaction withers1RNA-silencing factor Ers1 Positive GeneticPMID:22681890
negative genetic interaction witheso1sister chromatid cohesion protein/DNA polymerase eta Eso1 fusion protein Negative GeneticPMID:23050226
positive genetic interaction withfft3SMARCAD1 family ATP-dependent DNA helicase Fft3 Positive GeneticPMID:22681890
negative genetic interaction withgid7GID complex subunit Gid7 (predicted) Negative GeneticPMID:22681890
positive genetic interaction withhhp2serine/threonine protein kinase Hhp2 Positive GeneticPMID:22681890
negative genetic interaction withlaf1Clr6 L associated factor 1 Laf1 Negative GeneticPMID:22681890
synthetically rescued bymst2histone acetyltransferase Mst2 Synthetic RescuePMID:21289066
negative genetic interaction withnsk1Clp1-interacting, microtubule plus-end binding Nsk1 Negative GeneticPMID:22681890
positive genetic interaction withpar2protein phosphatase regulatory subunit Par2 Positive GeneticPMID:22681890
positive genetic interaction withrad57RecA family ATPase Rad57/Rhp57 Positive GeneticPMID:22681890
rescued byraf1CLRC ubiquitin E3 ligase complex specificiy factor Raf1/Dos1 Phenotypic SuppressionPMID:20211136
rescued byraf2Rik1-associated factor Raf2 Phenotypic SuppressionPMID:20211136
positive genetic interaction withraf2Rik1-associated factor Raf2 Positive GeneticPMID:22681890
rescued byrik1silencing protein Rik1 Phenotypic SuppressionPMID:20211136
positive genetic interaction withrik1silencing protein Rik1 Positive GeneticPMID:22681890
negative genetic interaction withsap14U2 snRNP-associated protein SF3B14 Sap14 Negative GeneticPMID:22681890
negative genetic interaction withsfp1transcription factor Sfp1 (predicted) Negative GeneticPMID:22681890
rescued bysir2Sirtuin family histone deacetylase Sir2 Phenotypic SuppressionPMID:20211136
positive genetic interaction withSPCC162.11curidine kinase/uracil phosphoribosyltransferase (predicted) Positive GeneticPMID:22681890
positive genetic interaction withswd1Set1C complex subunit Swd1 Positive GeneticPMID:22681890
negative genetic interaction withtoe2transcription factor, zf-fungal binuclear cluster type (predicted) Negative GeneticPMID:22681890
positive genetic interaction withtop1DNA topoisomerase I Positive GeneticPMID:22681890
positive genetic interaction withtrm10tRNA m(1)G methyltransferase Trm10 Positive GeneticPMID:22681890
positive genetic interaction withvrp1verprolin Positive GeneticPMID:22681890
External References
Database Identifier Description
NBRP SPBP8B7.28c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBP8B7.28c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBP8B7.28c BioGRID Interaction Datasets
Expression Viewer SPBP8B7.28c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBP8B7.28c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBP8B7.28c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBP8B7.28c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBP8B7.28c Polyadenylation Viewer (Gullerova lab)
pombeTV SPBP8B7.28c Transcriptome Viewer (Bähler Lab)
GEO SPBP8B7.28c GEO profiles
PInt SPBP8B7.28c Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBP8B7.28c Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBP8B7.28c Fission yeast phenotypic data & analysis
Cyclebase SPBP8B7.28c.1 Cell Cycle Data
SPD / RIKEN07/07D12Orfeome Localization Data
UniProtKB/SwissProtO94276Meiotic chromosome segregation protein P8B7.28c
ModBaseO94276Database of comparative protein structure models
STRINGO94276Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_596535LIM-like protein linking chromatin modification to RNAi, Stc1
RefSeq mRNANM_001022456972h- LIM-like protein linking chromatin modification to RNAi, Stc1 (stc1), mRNA
ePDB2LUYThe European PDB
PDB2LUYPDB
PDBsum2LUYPDBsum
European Nucleotide ArchiveCAA21813.1ENA Protein Mapping
UniParcUPI000006B57EUniProt Archive

Literature for stc1

Search: Europe PMC or PubMed

Release Version: PomBase:26_53 - 27 May 2015